Alternatives and similar repositories for pangenome

Users that are interested in pangenome are comparing it to the libraries listed below

• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆105Updated last month
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆131Updated 3 weeks ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆113Updated this week
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆118Updated 10 months ago
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆93Updated last year
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆124Updated 3 years ago
• nadegeguiglielmoni / genome_assembly_tools
  List of genome assembly tools
  ☆79Updated last week
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆118Updated 5 months ago
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆114Updated 4 months ago
• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆112Updated 3 months ago
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆87Updated 3 weeks ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆195Updated 2 months ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆125Updated 2 months ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆147Updated 2 months ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆101Updated last year
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆52Updated 2 months ago
• starskyzheng / panpop
  Application of pan-genome for population
  ☆110Updated 11 months ago
• qjiangzhao / TEtrimmer
  TEtrimmer: a novel tool to automate manual curation of transposable elements
  ☆100Updated last week
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆85Updated this week
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• wdecoster / nanostat
  Create statistic summary of an Oxford Nanopore read dataset
  ☆122Updated 2 years ago
• kjenike / panagram
  ☆66Updated last month
• c-zhou / oatk
  A organelle de novo genome assembly toolkit
  ☆69Updated 7 months ago
• WGLab / NanoCaller
  Variant calling tool for long-read sequencing data
  ☆112Updated 6 months ago
• AntonBankevich / LJA
  ☆117Updated 3 weeks ago
• GenomiqueENS / toulligQC
  A post sequencing QC tool for Oxford Nanopore sequencers
  ☆103Updated 2 months ago
• harvardinformatics / snpArcher
  Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.
  ☆82Updated last month
• harvardinformatics / GenomeAnnotation
  Best practices and workflow for genome annotation
  ☆78Updated 5 months ago
• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆103Updated 8 months ago
• kiranbandi / synvisio
  SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity …
  ☆89Updated last year